GgaINT0035021 @ galGal4
Intron Retention
Gene
ENSGALG00000002681 | HSD17B7
Description
3-keto-steroid reductase isoform 1 [Source:RefSeq peptide;Acc:NP_001264435]
Coordinates
chr8:3791265-3792003:-
Coord C1 exon
chr8:3791809-3792003
Coord A exon
chr8:3791370-3791808
Coord C2 exon
chr8:3791265-3791369
Length
439 bp
Sequences
Splice sites
5' ss Seq
CAGGTGACG
5' ss Score
7.66
3' ss Seq
ACTTGGTTTCTTCTCTGCAGGGT
3' ss Score
10.7
Exon sequences
Seq C1 exon
ATTCGTCAGCTCGAGTCTCTGCTCTGTGGCAACGAAAAGCCGTCACGACTCATCTGGACCTCTTCCAGCAATGCAAGGGAATCTGCCTTCAGCCTGTCTGACTATCAGCATGCCAAGGGGCAGGAATCATACAGTTCCTCCAAATACGCCACTGACCTGACAAGTGTGGTTCTGAACAGGAAATTTAATAAGCAG
Seq A exon
GTGACGATGGCGTTTGTGTGTCTGAAGGACTTAATGAGCACGTGCTATTTGTAATTATTGTTACGTTGCTGTTGCCTTGCTGCGTTAGTTCACGGCAATCAGATATGTGCCTTAACGCATGCATAGGAACTGGCTGTGGCTTTGGCTGCTCTGGTGGGGCTCGCAAGCTGCCAGCCACAGGTCTTCCTGCTTGGGTCACCCACTGCAGAGCATTTCTGATAGCAGAAGCTCTTAGGAGAGGTTCCTACCTTGCGAGCTTTACTCTTCTATTCAAACCAAAAAATTGGCCTTAAAGAGCAAAGGGCTGAAGTGCTGGCCACTCTTGCCAGGTGTGTGTGCCCATTGGTGCACTTGAGGCACAGATTCTGCCAGGGAGAGGGGGTGGGAGCCCTTCTTTGCTTTGGTGTAGTTACAAACTGACTTGGTTTCTTCTCTGCAG
Seq C2 exon
GGTCTGTATTCCAGTGTTGTTTGTCCTGGCCTCGTTATGTCCAACATGACCTTCAAAATCCTGCCCGTTTTTCTGTGGGTGCTGCTGATGCCCATCATGTTTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002681:ENSGALT00000004223:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010620=adh_short=PD(51.4=83.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAGCTCGAGTCTCTGCTCTG
R:
TGATGGGCATCAGCAGCAC
Band lengths:
287-726
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]